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    Lrrc28 leucine rich repeat containing 28 [ Mus musculus (house mouse) ]

    Gene ID: 67867, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Lrrc28provided by MGI
    Official Full Name
    leucine rich repeat containing 28provided by MGI
    Primary source
    MGI:MGI:1915689
    See related
    Ensembl:ENSMUSG00000030556 AllianceGenome:MGI:1915689
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    1300004K21Rik; 2210012C09Rik; 2310058O11Rik
    Summary
    Orthologous to human LRRC28 (leucine rich repeat containing 28). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in testis adult (RPKM 53.0), bladder adult (RPKM 4.5) and 11 other tissues See more
    Orthologs
    human all
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    Genomic context

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    Location:
    7 C; 7 37.05 cM
    Exon count:
    14
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (67163158..67295084, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (67513410..67645336, complement)

    Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74565953-74566106 Neighboring gene STARR-positive B cell enhancer ABC_E3726 Neighboring gene predicted gene, 51462 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74589405-74589631 Neighboring gene STARR-positive B cell enhancer ABC_E4934 Neighboring gene predicted gene, 33926 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74645213-74645604 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:74648142-74648407 Neighboring gene predicted gene, 34079 Neighboring gene predicted gene, 23233 Neighboring gene STARR-seq mESC enhancer starr_19098 Neighboring gene predicted gene, 32983 Neighboring gene STARR-seq mESC enhancer starr_19100 Neighboring gene STARR-seq mESC enhancer starr_19102 Neighboring gene STARR-positive B cell enhancer ABC_E550 Neighboring gene tetratricopeptide repeat domain 23 Neighboring gene predicted gene, 34140 Neighboring gene synemin, intermediate filament protein

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Effect of expression alteration in flanking genes on phenotypes of St8sia2-deficient mice. Ikegami K, et al. Sci Rep, 2019 Sep 20. PMID 31541165, Free PMC Article
    2. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
    3. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
    4. Wnk1 kinase deficiency lowers blood pressure in mice: a gene-trap screen to identify potential targets for therapeutic intervention. Zambrowicz BP, et al. Proc Natl Acad Sci U S A, 2003 Nov 25. PMID 14610273, Free PMC Article
    5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). Gerhard DS, et al. Genome Res, 2004 Oct. PMID 15489334, Free PMC Article

    See all (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (3) 

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat-containing protein 28

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_027413.1 → NP_081689.1  leucine-rich repeat-containing protein 28 isoform 2

      See identical proteins and their annotated locations for NP_081689.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks several 3' exons but has an alternate 3' exon, as compared to variant 1. The resulting isoform (2) is shorter and has a different C-terminus, as compared to isoform 1.
      Source sequence(s)
      AI663251, AK008713, AK050154
      Consensus CDS
      CCDS52269.1
      UniProtKB/TrEMBL
      Q8BWS3, Q9D7Y1
      Related
      ENSMUSP00000032775.6, ENSMUST00000032775.12
      Conserved Domains (2) summary
      sd00033
      Location:20 → 42
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:65 → 123
      LRR_8; Leucine rich repeat

    2. NM_175124.5 → NP_780333.3  leucine-rich repeat-containing protein 28 isoform 1

      See identical proteins and their annotated locations for NP_780333.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) is the longest transcript and encodes the longer isoform (1).
      Source sequence(s)
      AI663251, BC086694
      Consensus CDS
      CCDS21351.1
      UniProtKB/Swiss-Prot
      Q0VGR7, Q3TX51, Q8BK43
      Related
      ENSMUSP00000052177.3, ENSMUST00000053950.10
      Conserved Domains (2) summary
      sd00033
      Location:43 → 66
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:65 → 123
      LRR_8; Leucine rich repeat

    RNA

    1. NR_028143.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an internal segment, as compared to variant 1. The transcript is a nonsense-mediated mRNA decay candidate, so is unlikely to make a functional protein.
      Source sequence(s)
      AI663251, AK004904, BC086694

    2. NR_028144.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an exon in the 5' region, as compared to variant 1. The transcript is a nonsense-mediated mRNA decay candidate, so is unlikely to make a functional protein.
      Source sequence(s)
      AI663251, BC052051, BC086694
      Related
      ENSMUST00000187953.8

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000073.7 Reference GRCm39 C57BL/6J

      Range
      67163158..67295084 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006541130.4 → XP_006541193.1  leucine-rich repeat-containing protein 28 isoform X3

      Conserved Domains (3) summary
      PRK15370
      Location:41 → 281
      PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
      COG4886
      Location:34 → 157
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00033
      Location:43 → 66
      LRR_RI; leucine-rich repeat [structural motif]

    2. XM_036153393.1 → XP_036009286.1  leucine-rich repeat-containing protein 28 isoform X2

      Conserved Domains (2) summary
      PRK15370
      Location:8 → 290
      PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
      sd00033
      Location:43 → 66
      LRR_RI; leucine-rich repeat [structural motif]

    3. XM_036153392.1 → XP_036009285.1  leucine-rich repeat-containing protein 28 isoform X1

      Conserved Domains (3) summary
      PRK15370
      Location:8 → 232
      PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
      PRK15387
      Location:132 → 359
      PRK15387; type III secretion system effector E3 ubiquitin transferase SspH2
      sd00033
      Location:43 → 66
      LRR_RI; leucine-rich repeat [structural motif]

    4. XM_006541133.2 → XP_006541196.2  leucine-rich repeat-containing protein 28 isoform X4

      See identical proteins and their annotated locations for XP_006541196.2

      UniProtKB/TrEMBL
      Q8BVY5
      Conserved Domains (2) summary
      PRK15370
      Location:24 → 194
      PRK15370; type III secretion system effector E3 ubiquitin transferase SlrP
      sd00031
      Location:24 → 46
      LRR_1; leucine-rich repeat [structural motif]

    RNA

    1. XR_391360.4 RNA Sequence

    2. XR_004934174.1 RNA Sequence

    3. XR_004934173.1 RNA Sequence

    4. XR_004934175.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q3TX51.1 GenPept UniProtKB/Swiss-Prot:Q3TX51

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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